miRNA display CGI


Results 1 - 20 of 23 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23254 5' -57.2 NC_005259.1 + 37299 0.66 0.671584
Target:  5'- gCGGUGCC-CGCCGGgucaGCAGAc--AGCGc -3'
miRNA:   3'- -GUCGCGGuGCGGCC----UGUCUaacUCGU- -5'
23254 5' -57.2 NC_005259.1 + 47971 0.66 0.64682
Target:  5'- -cGCGCCGCccgcgaauauGCCGGGCAGcgcaagaccggcuuGUgUGAGCu -3'
miRNA:   3'- guCGCGGUG----------CGGCCUGUC--------------UA-ACUCGu -5'
23254 5' -57.2 NC_005259.1 + 25919 0.66 0.628466
Target:  5'- gAGcCGCCGcCGCCGGucCGG--UGAGCGc -3'
miRNA:   3'- gUC-GCGGU-GCGGCCu-GUCuaACUCGU- -5'
23254 5' -57.2 NC_005259.1 + 43901 0.66 0.617671
Target:  5'- -uGC-CCGCGCCGG-CuGAUcgaUGGGCAg -3'
miRNA:   3'- guCGcGGUGCGGCCuGuCUA---ACUCGU- -5'
23254 5' -57.2 NC_005259.1 + 3312 0.67 0.606888
Target:  5'- gAGCGCUgcgucgacgugaGCGCCGGGCAGcucugcgUGcucGGCAc -3'
miRNA:   3'- gUCGCGG------------UGCGGCCUGUCua-----AC---UCGU- -5'
23254 5' -57.2 NC_005259.1 + 1547 0.67 0.606888
Target:  5'- uCGGgGCCGCGUUcgGGGCGGugacgcugUGAGCGc -3'
miRNA:   3'- -GUCgCGGUGCGG--CCUGUCua------ACUCGU- -5'
23254 5' -57.2 NC_005259.1 + 17761 0.67 0.585392
Target:  5'- aGGcCGCCgcGCGCCGGGCcGAgcgcaccGAGCGu -3'
miRNA:   3'- gUC-GCGG--UGCGGCCUGuCUaa-----CUCGU- -5'
23254 5' -57.2 NC_005259.1 + 14159 0.67 0.574697
Target:  5'- -cGCGUCGuguggaucuCGCCGGGCGGGU--GGCAa -3'
miRNA:   3'- guCGCGGU---------GCGGCCUGUCUAacUCGU- -5'
23254 5' -57.2 NC_005259.1 + 20259 0.67 0.564047
Target:  5'- aCA-CGCCGCGCCGGGCcGAUggaucgugGAcGCGc -3'
miRNA:   3'- -GUcGCGGUGCGGCCUGuCUAa-------CU-CGU- -5'
23254 5' -57.2 NC_005259.1 + 36734 0.68 0.55345
Target:  5'- -cGCGCC-CGCCGGGauacguGAUcccguUGAGCGu -3'
miRNA:   3'- guCGCGGuGCGGCCUgu----CUA-----ACUCGU- -5'
23254 5' -57.2 NC_005259.1 + 5042 0.68 0.542913
Target:  5'- aCAGCGCCACGUugaucaCGGuCgAGAUcgUGGGCc -3'
miRNA:   3'- -GUCGCGGUGCG------GCCuG-UCUA--ACUCGu -5'
23254 5' -57.2 NC_005259.1 + 46782 0.68 0.532444
Target:  5'- -cGCGCC-CGCCGGGCcGAacaccGAGCc -3'
miRNA:   3'- guCGCGGuGCGGCCUGuCUaa---CUCGu -5'
23254 5' -57.2 NC_005259.1 + 68539 0.68 0.532444
Target:  5'- --cCGCCACGCgucgacauCGGGguGGUUGAGCc -3'
miRNA:   3'- gucGCGGUGCG--------GCCUguCUAACUCGu -5'
23254 5' -57.2 NC_005259.1 + 44734 0.68 0.532444
Target:  5'- gCAGCGCgcccucgacCGCGCCGaGGCuc-UUGAGCAc -3'
miRNA:   3'- -GUCGCG---------GUGCGGC-CUGucuAACUCGU- -5'
23254 5' -57.2 NC_005259.1 + 37691 0.68 0.532444
Target:  5'- -uGUGcCCGCGCCGGACuGAUUuuGCc -3'
miRNA:   3'- guCGC-GGUGCGGCCUGuCUAAcuCGu -5'
23254 5' -57.2 NC_005259.1 + 26611 0.68 0.522047
Target:  5'- --aCGCCGCGCCGGACcGGU--AGCc -3'
miRNA:   3'- gucGCGGUGCGGCCUGuCUAacUCGu -5'
23254 5' -57.2 NC_005259.1 + 36307 0.68 0.522047
Target:  5'- gAGCGCUugGgCGGGCGGGaucaugUUG-GCAa -3'
miRNA:   3'- gUCGCGGugCgGCCUGUCU------AACuCGU- -5'
23254 5' -57.2 NC_005259.1 + 66256 0.69 0.491358
Target:  5'- gCAGCGCggccCGCGCCGGGCGGc---GGCu -3'
miRNA:   3'- -GUCGCG----GUGCGGCCUGUCuaacUCGu -5'
23254 5' -57.2 NC_005259.1 + 11004 0.69 0.491358
Target:  5'- aCGGCaCCGCGCCGGACGcgccGAggcagGAGUu -3'
miRNA:   3'- -GUCGcGGUGCGGCCUGU----CUaa---CUCGu -5'
23254 5' -57.2 NC_005259.1 + 58583 0.69 0.442185
Target:  5'- gCGGCGCgGCuGCCGGGcCGGAUcuuuucGAGCGc -3'
miRNA:   3'- -GUCGCGgUG-CGGCCU-GUCUAa-----CUCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.